ICAR-Indian Agricultural Statistics Research Institute, New Delhi 110012, India.
ICAR- Indian Institute of Spices Research, Kozhikode, Kerala 673012, India.
Genomics. 2020 Mar;112(2):2041-2051. doi: 10.1016/j.ygeno.2019.11.017. Epub 2019 Nov 23.
Small cardamom (Elettaria cardamomum), grown in limited coastal tropical countries is one of the costliest and widely exported agri-produce having global turnover of >10 billion USD. Mosaic/marble disease is one of the major impediments that requires understanding of disease at molecular level. Neither whole genome sequence nor any genomic resources are available, thus RNA seq approach can be a rapid and economical alternative. De novo transcriptome assembly was done with Illumina Hiseq data. A total of 5317 DEGs, 2267 TFs, 114 pathways and 175,952 genic region putative markers were obtained. Gene regulatory network analysis deciphered molecular events involved in marble disease. This is the first transcriptomic report revealing disease mechanism mediated by perturbation in auxin homeostasis and ethylene signalling leading to senescence. The web-genomic resource (SCMVTDb) catalogues putative molecular markers, candidate genes and transcript information. SCMVTDb can be used in germplasm improvement against mosaic disease in endeavour of small cardamom productivity. Availability of genomic resource, SCMVTDb: http://webtom.cabgrid.res.in/scmvtdb/.
小豆蔻（小豆蔻），生长在有限的热带沿海国家，是最昂贵和广泛出口的农产品之一，全球营业额超过 100 亿美元。花叶病是主要障碍之一，需要在分子水平上了解疾病。既没有全基因组序列，也没有任何基因组资源，因此 RNA 测序方法可能是一种快速而经济的替代方法。使用 Illumina Hiseq 数据进行从头转录组组装。共获得 5317 个 DEGs、2267 个 TF、114 个途径和 175952 个基因区域假定标记。基因调控网络分析揭示了大理石病介导的分子事件。这是第一个转录组报告，揭示了由生长素稳态和乙烯信号转导紊乱引起的衰老介导的疾病机制。网络基因组资源（SCMVTDb）编目了假定的分子标记、候选基因和转录信息。SCMVTDb 可用于针对马赛克病的种质改良，以提高小豆蔻的生产力。基因组资源可用性，SCMVTDb：http://webtom.cabgrid.res.in/scmvtdb/。
